Bayesian community-wide culture-independent microbial source tracking

Dan Knights, Justin Kuczynski, Emily S. Charlson, Jesse Zaneveld, Michael C. Mozer, Ronald G. Collman, Frederic D. Bushman, Rob Knight, Scott T. Kelley

Research output: Contribution to journalArticlepeer-review

460 Scopus citations

Abstract

Contamination is a critical issue in high-throughput metagenomic studies, yet progress toward a comprehensive solution has been limited. We present SourceTracker, a Bayesian approach to estimate the proportion of contaminants in a given community that come from possible source environments. We applied SourceTracker to microbial surveys from neonatal intensive care units (NICUs), offices and molecular biology laboratories, and provide a database of known contaminants for future testing.

Original languageEnglish (US)
Pages (from-to)761-765
Number of pages5
JournalNature Methods
Volume8
Issue number9
DOIs
StatePublished - Sep 1 2011
Externally publishedYes

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